A comparison between the mutated reverse transcriptase of HIV and the wild type was carried out using molecular dynamics simulations. Different metrics such as RMSD, radius of gyration and a PCA analysis were computed to investigate the difference in conformation of the two proteins. Finally, dynophores were used to analyze the binding mode of an inhibitor on the two enzymes.
Nizami, Bilal, Dominique Sydow, Gerhard Wolber, and Bahareh Honarparvar. “Molecular Insight on the Binding of NNRTI to K103N Mutated HIV-1 RT: Molecular Dynamics Simulations and Dynamic Pharmacophore Analysis.” Molecular BioSystems 12, no. 11 (2016): 3385–95.
A comparison between the mutated reverse transcriptase of HIV and the wild type was carried out using molecular dynamics simulations. Different metrics such as RMSD, radius of gyration and a PCA analysis were computed to investigate the difference in conformation of the two proteins. Finally, dynophores were used to analyze the binding mode of an inhibitor on the two enzymes.